data_6CKC # _model_server_result.job_id RybP3eGvk448VvwtaxJ8vA _model_server_result.datetime_utc '2025-08-31 22:40:32' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6ckc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 6CKC # _exptl.entry_id 6CKC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 342.349 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 7-[(5R)-5-C-phenyl-beta-D-ribofuranosyl]-7H-pyrrolo[2,3-d]pyrimidin-4-amine _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6CKC _cell.length_a 102.785 _cell.length_b 139.077 _cell.length_c 178.961 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6CKC _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_445 -x-1,-y-1,z -1 0 0 0 -1 0 0 0 1 -102.785 -139.077 0 3 'crystal symmetry operation' 3_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -102.785 0 0 4 'crystal symmetry operation' 4_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -139.077 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C17 H18 N4 O4' _chem_comp.formula_weight 342.349 _chem_comp.id F5J _chem_comp.mon_nstd_flag . _chem_comp.name 7-[(5R)-5-C-phenyl-beta-D-ribofuranosyl]-7H-pyrrolo[2,3-d]pyrimidin-4-amine _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O25 C17 F5J sing 83 n n C2 C4 F5J doub 84 n y C2 C1 F5J sing 85 n y C4 C10 F5J sing 86 n y C1 C3 F5J doub 87 n y C3 C5 F5J sing 88 n y C10 C5 F5J doub 89 n y C10 C17 F5J sing 90 n n C17 C15 F5J sing 91 n n O22 C15 F5J sing 92 n n O22 C16 F5J sing 93 n n C15 C13 F5J sing 94 n n C7 C6 F5J doub 95 n y C7 N20 F5J sing 96 n y C6 C9 F5J sing 97 n y N20 C16 F5J sing 98 n n N20 C11 F5J sing 99 n y N21 C12 F5J sing 100 n n C9 C12 F5J doub 101 n y C9 C11 F5J sing 102 n y C13 C14 F5J sing 103 n n C13 O23 F5J sing 104 n n C16 C14 F5J sing 105 n n C12 N19 F5J sing 106 n y C11 N18 F5J doub 107 n y C14 O24 F5J sing 108 n n N19 C8 F5J doub 109 n y N18 C8 F5J sing 110 n y C7 H1 F5J sing 111 n n C6 H2 F5J sing 112 n n C1 H3 F5J sing 113 n n C5 H4 F5J sing 114 n n C4 H5 F5J sing 115 n n C3 H6 F5J sing 116 n n C2 H7 F5J sing 117 n n C8 H8 F5J sing 118 n n C13 H9 F5J sing 119 n n C14 H10 F5J sing 120 n n C15 H11 F5J sing 121 n n C16 H12 F5J sing 122 n n C17 H13 F5J sing 123 n n N21 H14 F5J sing 124 n n N21 H15 F5J sing 125 n n O23 H16 F5J sing 126 n n O24 H17 F5J sing 127 n n O25 H18 F5J sing 128 n n # _atom_sites.entry_id 6CKC _atom_sites.fract_transf_matrix[1][1] 0.009729 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00719 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.005588 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 F5J A 1 701 1 F5J SX1 . D 4 HOH A 1 801 4 HOH HOH . D 4 HOH A 2 802 29 HOH HOH . D 4 HOH A 3 803 52 HOH HOH . D 4 HOH A 4 804 51 HOH HOH . D 4 HOH A 5 805 55 HOH HOH . D 4 HOH A 6 806 57 HOH HOH . D 4 HOH A 7 807 21 HOH HOH . D 4 HOH A 8 808 18 HOH HOH . D 4 HOH A 9 809 73 HOH HOH . D 4 HOH A 10 810 75 HOH HOH . D 4 HOH A 11 811 80 HOH HOH . D 4 HOH A 12 812 14 HOH HOH . D 4 HOH A 13 813 17 HOH HOH . D 4 HOH A 14 814 61 HOH HOH . D 4 HOH A 15 815 5 HOH HOH . D 4 HOH A 16 816 65 HOH HOH . D 4 HOH A 17 817 3 HOH HOH . D 4 HOH A 18 818 60 HOH HOH . D 4 HOH A 19 819 63 HOH HOH . D 4 HOH A 20 820 28 HOH HOH . D 4 HOH A 21 821 70 HOH HOH . D 4 HOH A 22 822 72 HOH HOH . D 4 HOH A 23 823 13 HOH HOH . D 4 HOH A 24 824 74 HOH HOH . D 4 HOH A 25 825 47 HOH HOH . D 4 HOH A 26 826 36 HOH HOH . D 4 HOH A 27 827 81 HOH HOH . D 4 HOH A 28 828 19 HOH HOH . D 4 HOH A 29 829 69 HOH HOH . D 4 HOH A 30 830 79 HOH HOH . D 4 HOH A 31 831 68 HOH HOH . D 4 HOH A 32 832 38 HOH HOH . D 4 HOH A 33 833 33 HOH HOH . D 4 HOH A 34 834 31 HOH HOH . D 4 HOH A 35 835 1 HOH HOH . D 4 HOH A 36 836 67 HOH HOH . D 4 HOH A 37 837 32 HOH HOH . D 4 HOH A 38 838 40 HOH HOH . D 4 HOH A 39 839 43 HOH HOH . D 4 HOH A 40 840 24 HOH HOH . D 4 HOH A 41 841 2 HOH HOH . D 4 HOH A 42 842 15 HOH HOH . D 4 HOH A 43 843 46 HOH HOH . D 4 HOH A 44 844 27 HOH HOH . D 4 HOH A 45 845 9 HOH HOH . D 4 HOH A 46 846 54 HOH HOH . D 4 HOH A 47 847 62 HOH HOH . D 4 HOH A 48 848 66 HOH HOH . D 4 HOH A 49 849 41 HOH HOH . D 4 HOH A 50 850 42 HOH HOH . D 4 HOH A 51 851 37 HOH HOH . D 4 HOH A 52 852 44 HOH HOH . D 4 HOH A 53 853 77 HOH HOH . D 4 HOH A 54 854 16 HOH HOH . D 4 HOH A 55 855 78 HOH HOH . E 4 HOH B 1 401 11 HOH HOH . E 4 HOH B 2 402 6 HOH HOH . E 4 HOH B 3 403 71 HOH HOH . E 4 HOH B 4 404 58 HOH HOH . E 4 HOH B 5 405 48 HOH HOH . E 4 HOH B 6 406 53 HOH HOH . E 4 HOH B 7 407 25 HOH HOH . E 4 HOH B 8 408 10 HOH HOH . E 4 HOH B 9 409 35 HOH HOH . E 4 HOH B 10 410 49 HOH HOH . E 4 HOH B 11 411 26 HOH HOH . E 4 HOH B 12 412 76 HOH HOH . E 4 HOH B 13 413 30 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C7 F5J . . . C 3 -36.524 -38.003 -4.512 1 38.97 ? C7 F5J 701 A 1 HETATM 2 C C6 F5J . . . C 3 -37.801 -37.452 -4.49 1 37.54 ? C6 F5J 701 A 1 HETATM 3 C C1 F5J . . . C 3 -28.424 -41.024 -6.178 1 42.36 ? C1 F5J 701 A 1 HETATM 4 C C5 F5J . . . C 3 -29.75 -38.969 -6.161 1 42.69 ? C5 F5J 701 A 1 HETATM 5 C C4 F5J . . . C 3 -30.856 -41.123 -6.181 1 43.49 ? C4 F5J 701 A 1 HETATM 6 C C3 F5J . . . C 3 -28.504 -39.622 -6.173 1 42.99 ? C3 F5J 701 A 1 HETATM 7 C C2 F5J . . . C 3 -29.607 -41.775 -6.184 1 42.9 ? C2 F5J 701 A 1 HETATM 8 C C8 F5J . . . C 3 -36.817 -34.199 -2.294 1 44.95 ? C8 F5J 701 A 1 HETATM 9 C C9 F5J . . . C 3 -37.711 -36.232 -3.782 1 38.79 ? C9 F5J 701 A 1 HETATM 10 C C10 F5J . . . C 3 -30.93 -39.72 -6.167 1 43.25 ? C10 F5J 701 A 1 HETATM 11 C C11 F5J . . . C 3 -36.377 -36.099 -3.361 1 41.8 ? C11 F5J 701 A 1 HETATM 12 C C12 F5J . . . C 3 -38.594 -35.221 -3.413 1 42.64 ? C12 F5J 701 A 1 HETATM 13 C C13 F5J . . . C 3 -32.543 -39.116 -3.617 1 48.86 ? C13 F5J 701 A 1 HETATM 14 C C14 F5J . . . C 3 -33.949 -38.854 -3.057 1 46.07 ? C14 F5J 701 A 1 HETATM 15 C C15 F5J . . . C 3 -32.464 -38.232 -4.863 1 49.14 ? C15 F5J 701 A 1 HETATM 16 C C16 F5J . . . C 3 -34.273 -37.473 -3.594 1 41.28 ? C16 F5J 701 A 1 HETATM 17 C C17 F5J . . . C 3 -32.26 -39.018 -6.154 1 44.72 ? C17 F5J 701 A 1 HETATM 18 N N18 F5J . . . C 3 -35.869 -35.115 -2.575 1 43.61 ? N18 F5J 701 A 1 HETATM 19 N N19 F5J . . . C 3 -38.116 -34.173 -2.704 1 45.08 ? N19 F5J 701 A 1 HETATM 20 N N20 F5J . . . C 3 -35.672 -37.193 -3.817 1 38.81 ? N20 F5J 701 A 1 HETATM 21 N N21 F5J . . . C 3 -39.951 -35.229 -3.805 1 45.43 ? N21 F5J 701 A 1 HETATM 22 O O22 F5J . . . C 3 -33.723 -37.51 -4.908 1 48.33 ? O22 F5J 701 A 1 HETATM 23 O O23 F5J . . . C 3 -31.5 -38.706 -2.726 1 45.9 ? O23 F5J 701 A 1 HETATM 24 O O24 F5J . . . C 3 -34.041 -38.969 -1.641 1 46.52 ? O24 F5J 701 A 1 HETATM 25 O O25 F5J . . . C 3 -33.283 -40.008 -6.297 1 46.5 ? O25 F5J 701 A 1 # _model_server_stats.io_time_ms 38 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 374 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 25 #